Locus 15498

Sequence ID dm3.chrX
Location 19,309,318 – 19,309,419
Length 101
Max. P 0.999589
window21369 window21370

overview

Window 9

Location 19,309,318 – 19,309,419
Length 101
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 78.72
Shannon entropy 0.27276
G+C content 0.30734
Mean single sequence MFE -25.91
Consensus MFE -19.22
Energy contribution -18.78
Covariance contribution -0.44
Combinations/Pair 1.12
Mean z-score -4.91
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 4.05
SVM RNA-class probability 0.999589
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19309318 101 + 22422827
UCAAUUAUUUAAGUGUCGAAAAGUGUGCAAAAUUGAGAGAGUAUUCUUAAGUAUUCAUUUCUAAGAGCGAUAUAUUUUGUCACUGCAUACUUUUUGACACU
...........(((((((((((((((((......((((((((((......)))))).))))....((.((((.....)))).))))))))))))))))))) ( -35.00, z-score =  -6.12, R)
>droSim1.chrX 14931613 80 + 17042790
UCAAUUAUUUAGGUGUCGCAAAGUAUGCAACAAAGA--------UUUUAAGUAUUCAUUUCU-------------UUUGCCACUGCAUACUUUUUGACACU
...........(((((((.((((((((((.((((((--------...............)).-------------))))....)))))))))).))))))) ( -21.36, z-score =  -4.31, R)
>droSec1.super_8 1601251 80 + 3762037
UCAAUUAUUUAGGUGUCGCAAAGUAUGCAACAAAGA--------UUUUAAGUUUUCAUUUCU-------------UUUGCCACUGCAUACUUUUUGACACU
...........(((((((.((((((((((.((((((--------...............)).-------------))))....)))))))))).))))))) ( -21.36, z-score =  -4.31, R)
>consensus
UCAAUUAUUUAGGUGUCGCAAAGUAUGCAACAAAGA________UUUUAAGUAUUCAUUUCU_____________UUUGCCACUGCAUACUUUUUGACACU
...........(((((((.((((((((((......................................................)))))))))).))))))) (-19.22 = -18.78 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 19,309,318 – 19,309,419
Length 101
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 78.72
Shannon entropy 0.27276
G+C content 0.30734
Mean single sequence MFE -21.27
Consensus MFE -16.42
Energy contribution -16.75
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.36
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.10
SVM RNA-class probability 0.997428
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19309318 101 - 22422827
AGUGUCAAAAAGUAUGCAGUGACAAAAUAUAUCGCUCUUAGAAAUGAAUACUUAAGAAUACUCUCUCAAUUUUGCACACUUUUCGACACUUAAAUAAUUGA
((((((.((((((.((((((((.........))))((((((..........))))))...............)))).)))))).))))))........... ( -21.40, z-score =  -2.81, R)
>droSim1.chrX 14931613 80 - 17042790
AGUGUCAAAAAGUAUGCAGUGGCAAA-------------AGAAAUGAAUACUUAAAA--------UCUUUGUUGCAUACUUUGCGACACCUAAAUAAUUGA
.(((((..(((((((((((..(....-------------(((..(((....)))...--------))))..)))))))))))..)))))............ ( -21.20, z-score =  -3.59, R)
>droSec1.super_8 1601251 80 - 3762037
AGUGUCAAAAAGUAUGCAGUGGCAAA-------------AGAAAUGAAAACUUAAAA--------UCUUUGUUGCAUACUUUGCGACACCUAAAUAAUUGA
.(((((..(((((((((((..(....-------------(((..(((....)))...--------))))..)))))))))))..)))))............ ( -21.20, z-score =  -3.67, R)
>consensus
AGUGUCAAAAAGUAUGCAGUGGCAAA_____________AGAAAUGAAUACUUAAAA________UCUUUGUUGCAUACUUUGCGACACCUAAAUAAUUGA
.(((((..(((((((((((....................................................)))))))))))..)))))............ (-16.42 = -16.75 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:00:36 2011